S100a4 (S100 calcium-binding protein A4) - Rat Genome Database

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Gene: S100a4 (S100 calcium-binding protein A4) Rattus norvegicus
Analyze
Symbol: S100a4
Name: S100 calcium-binding protein A4
RGD ID: 3245
Description: Enables actin binding activity; calcium ion binding activity; and calcium-dependent protein binding activity. Predicted to be involved in positive regulation of I-kappaB kinase/NF-kappaB signaling. Located in neuron projection. Orthologous to human S100A4 (S100 calcium binding protein A4); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 18A2; 42A; calvasculin; CAPL; metastasin; MTS1; nerve growth factor-induced protein 42A; P9K; P9ka; PEL98; placental calcium-binding protein; protein 9 Ka homologous to calcium-binding protein; protein S100-A4; RNP9KA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22176,090,951 - 176,093,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2183,231,137 - 183,233,459 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02181,253,405 - 181,255,727 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02175,853,265 - 175,855,593 (+)NCBIRnor_WKY
Rnor_6.02189,997,278 - 189,999,587 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02209,431,373 - 209,433,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42182,885,070 - 182,887,380 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12182,835,175 - 182,837,486 (+)NCBI
Celera2170,025,678 - 170,027,982 (+)NCBICelera
RH 3.4 Map21164.6RGD
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1,4-dithiothreitol  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-nitrotoluene  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (EXP,ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
andrographolide  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
apocynin  (ISO)
aristolochic acid  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
atrazine  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
beta-naphthoflavone  (ISO)
bilirubin IXalpha  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
calcitriol  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
cycloheximide  (ISO)
cyclosporin A  (EXP,ISO)
cytarabine  (ISO)
D-penicillamine  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
Diosbulbin B  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dopamine  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethylenediaminetetraacetic acid  (ISO)
fenoldopam  (EXP)
fenpyroximate  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
furan  (EXP)
geldanamycin  (ISO)
gentamycin  (EXP)
glycidol  (EXP)
graphene oxide  (ISO)
homocysteine  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
iohexol  (ISO)
iopamidol  (ISO)
isoprenaline  (EXP)
isotretinoin  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
L-1,4-dithiothreitol  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
losartan  (ISO)
Malonoben  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methotrexate  (ISO)
methyl carbamate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
Miglitol  (EXP,ISO)
milrinone  (EXP)
mitomycin C  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
niclosamide  (ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
Pachymic acid  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
parathion  (ISO)
pentetic acid  (ISO)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
pravastatin  (EXP,ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
scopolamine  (EXP)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sirolimus  (EXP)
sodium arsenite  (ISO)
sodium tungstate  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
Triptolide  (EXP)
tunicamycin  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)
xanthohumol  (ISO)
zaragozic acid A  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Calcium-ion binding by the potential calcium-ion-binding protein, p9Ka. Barraclough R, etal., Biochem Biophys Res Commun. 1990 Jun 15;169(2):660-6.
2. Molecular cloning and sequence of the gene for p9Ka. A cultured myoepithelial cell protein with strong homology to S-100, a calcium-binding protein. Barraclough R, etal., J Mol Biol 1987 Nov 5;198(1):13-20.
3. Transformation of normal rat kidney cells by v-K-ras enhances expression of transin 2 and an S-100-related calcium-binding protein. De Vouge MW and Mukherjee BB, Oncogene 1992 Jan;7(1):109-19.
4. Protein interactions between S100A4 (p9Ka) and other cellular proteins identified using in vitro methods. Flynn AM, etal., Biochem Soc Trans. 1996 Aug;24(3):341S.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
7. Gene expression profile of rat adipose tissue at the onset of high-fat-diet obesity. Li J, etal., Am J Physiol Endocrinol Metab 2002 Jun;282(6):E1334-41.
8. Nerve growth factor induces the genes for two proteins related to a family of calcium-binding proteins in PC12 cells. Masiakowski P and Shooter EM, Proc Natl Acad Sci U S A 1988 Feb;85(4):1277-81.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. An integrated rat genetic map: analysis of linkage conservation with the mouse and human maps. Remmers EF, etal., Transplant Proc 1999 May;31(3):1549-54.
12. GOA pipeline RGD automated data pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Metastasis-associated S100A4 (Mts1) protein is expressed in subpopulations of sensory and autonomic neurons and in Schwann cells of the adult rat. Sandelin M, etal., J Comp Neurol 2004 May 24;473(2):233-43.
15. Calcium, troponin, calmodulin, S100 proteins: from myocardial basics to new therapeutic strategies. Schaub MC and Heizmann CW, Biochem Biophys Res Commun. 2008 Apr 25;369(1):247-64. Epub 2007 Oct 25.
16. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
17. The C-terminal region of S100A4 is important for its metastasis-inducing properties. Zhang S, etal., Oncogene 2005 Jun 23;24(27):4401-11.
Additional References at PubMed
PMID:9242709   PMID:10869553   PMID:11914069   PMID:12118070   PMID:15033494   PMID:15665453   PMID:16265672   PMID:17223348   PMID:19056867   PMID:20421509   PMID:21975553   PMID:22483112  
PMID:22561747   PMID:22658674   PMID:22664934   PMID:23222508   PMID:23352991   PMID:23376485   PMID:23469180   PMID:23580065   PMID:25253987   PMID:26499072   PMID:26721462   PMID:27068509  
PMID:28235243   PMID:30083275  


Genomics

Comparative Map Data
S100a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22176,090,951 - 176,093,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2183,231,137 - 183,233,459 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02181,253,405 - 181,255,727 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02175,853,265 - 175,855,593 (+)NCBIRnor_WKY
Rnor_6.02189,997,278 - 189,999,587 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02209,431,373 - 209,433,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42182,885,070 - 182,887,380 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12182,835,175 - 182,837,486 (+)NCBI
Celera2170,025,678 - 170,027,982 (+)NCBICelera
RH 3.4 Map21164.6RGD
Cytogenetic Map2q34NCBI
S100A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381153,543,621 - 153,545,806 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1153,543,613 - 153,550,136 (-)EnsemblGRCh38hg38GRCh38
GRCh371153,516,097 - 153,518,282 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361151,782,719 - 151,784,906 (-)NCBINCBI36Build 36hg18NCBI36
Build 341150,329,170 - 150,331,355NCBI
Celera1126,587,355 - 126,589,542 (-)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1124,879,355 - 124,881,542 (-)NCBIHuRef
CHM1_11154,912,044 - 154,914,231 (-)NCBICHM1_1
T2T-CHM13v2.01152,680,877 - 152,683,062 (-)NCBIT2T-CHM13v2.0
S100a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39390,511,077 - 90,513,352 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl390,511,078 - 90,513,352 (+)EnsemblGRCm39 Ensembl
GRCm38390,603,770 - 90,606,045 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl390,603,771 - 90,606,045 (+)EnsemblGRCm38mm10GRCm38
MGSCv37390,407,692 - 90,409,967 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36390,689,697 - 90,691,968 (+)NCBIMGSCv36mm8
Celera390,645,174 - 90,647,449 (+)NCBICelera
Cytogenetic Map3F1NCBI
cM Map339.27NCBI
S100a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955545192,116 - 195,394 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955545192,236 - 194,468 (-)NCBIChiLan1.0ChiLan1.0
S100A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11132,527,846 - 132,530,125 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1132,527,846 - 132,530,122 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01128,898,765 - 128,901,042 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
S100A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1743,494,007 - 43,496,021 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha742,986,972 - 42,988,993 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0743,443,738 - 43,445,759 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl743,440,733 - 43,445,796 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1743,146,014 - 43,148,039 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0743,199,907 - 43,201,928 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0743,483,524 - 43,485,545 (+)NCBIUU_Cfam_GSD_1.0
S100a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505824,325,369 - 24,327,658 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365803,355,751 - 3,358,030 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
S100A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl496,088,201 - 96,091,156 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1496,088,102 - 96,091,160 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24104,908,141 - 104,911,151 (-)NCBISscrofa10.2Sscrofa10.2susScr3
S100A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12010,258,142 - 10,260,390 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2010,258,070 - 10,260,871 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660389,649,628 - 9,651,911 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
S100a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248853,586,909 - 3,592,914 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248853,589,323 - 3,591,463 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
D2Mit13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2156,794,419 - 56,794,475 (+)MAPPERmRatBN7.2
mRatBN7.22176,092,339 - 176,092,546 (+)MAPPERmRatBN7.2
Rnor_6.02189,998,667 - 189,998,875NCBIRnor6.0
Rnor_5.02209,432,762 - 209,432,968UniSTSRnor5.0
RGSC_v3.42182,886,458 - 182,886,669RGDRGSC3.4
RGSC_v3.42182,886,459 - 182,886,669UniSTSRGSC3.4
RGSC_v3.12182,836,564 - 182,836,775RGD
Celera2170,027,065 - 170,027,271UniSTS
SHRSP x BN Map270.0198UniSTS
SHRSP x BN Map270.0198RGD
Cytogenetic Map2q34UniSTS
D2Wox23  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,091,092 - 176,091,187 (+)MAPPERmRatBN7.2
Rnor_6.02189,997,420 - 189,997,514NCBIRnor6.0
Rnor_5.02209,431,515 - 209,431,609UniSTSRnor5.0
RGSC_v3.42182,885,212 - 182,885,306UniSTSRGSC3.4
RGSC_v3.12182,835,317 - 182,835,412RGD
Celera2170,025,820 - 170,025,912UniSTS
Cytogenetic Map2q34UniSTS
D2Arb37  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,092,313 - 176,092,591 (+)MAPPERmRatBN7.2
Rnor_6.02189,998,641 - 189,998,920NCBIRnor6.0
Rnor_5.02209,432,736 - 209,433,013UniSTSRnor5.0
RGSC_v3.42182,886,432 - 182,886,714RGDRGSC3.4
RGSC_v3.42182,886,433 - 182,886,714UniSTSRGSC3.4
RGSC_v3.12182,836,538 - 182,836,820RGD
Celera2170,027,039 - 170,027,316UniSTS
SHRSP x BN Map270.0198UniSTS
SHRSP x BN Map270.0198RGD
Cytogenetic Map2q34UniSTS
RH132651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,089,314 - 176,089,508 (+)MAPPERmRatBN7.2
Rnor_6.02189,995,642 - 189,995,835NCBIRnor6.0
Rnor_5.02209,429,737 - 209,429,930UniSTSRnor5.0
RGSC_v3.42182,883,434 - 182,883,627UniSTSRGSC3.4
Celera2170,024,042 - 170,024,235UniSTS
RH 3.4 Map21165.4UniSTS
Cytogenetic Map2q34UniSTS
RH94503  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,093,136 - 176,093,239 (+)MAPPERmRatBN7.2
Rnor_6.02189,999,466 - 189,999,568NCBIRnor6.0
Rnor_5.02209,433,559 - 209,433,661UniSTSRnor5.0
RGSC_v3.42182,887,260 - 182,887,362UniSTSRGSC3.4
Celera2170,027,862 - 170,027,964UniSTS
RH 3.4 Map21164.6UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2143657411190602963Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168354880185122374Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2172710921184114403Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2174930955213594495Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:38
Interacting mature miRNAs:38
Transcripts:ENSRNOT00000015958
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 33 14 2 19 2 8 11 23 16 11 8
Low 10 43 39 39 62 12 24
Below cutoff 8 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC097705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221508 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221860 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229874 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J03628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U94663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000015958   ⟹   ENSRNOP00000015958
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)Ensembl
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)Ensembl
RefSeq Acc Id: NM_012618   ⟹   NP_036750
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22176,090,951 - 176,093,257 (+)NCBI
Rnor_6.02189,997,278 - 189,999,586 (+)NCBI
Rnor_5.02209,431,373 - 209,433,680 (+)NCBI
RGSC_v3.42182,885,070 - 182,887,380 (+)RGD
Celera2170,025,678 - 170,027,982 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232592   ⟹   XP_006232654
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22176,091,780 - 176,093,258 (+)NCBI
Rnor_6.02189,998,123 - 189,999,587 (+)NCBI
Rnor_5.02209,431,373 - 209,433,680 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039101725   ⟹   XP_038957653
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22176,091,901 - 176,093,258 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036750   ⟸   NM_012618
- UniProtKB: P05942 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006232654   ⟸   XM_006232592
- Peptide Label: isoform X1
- UniProtKB: P05942 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015958   ⟸   ENSRNOT00000015958
RefSeq Acc Id: XP_038957653   ⟸   XM_039101725
- Peptide Label: isoform X1
- UniProtKB: P05942 (UniProtKB/Swiss-Prot)
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P05942-F1-model_v2 AlphaFold P05942 1-101 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691508
Promoter ID:EPDNEW_R2033
Type:single initiation site
Name:S100a4_1
Description:S100 calcium-binding protein A4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02189,997,278 - 189,997,338EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3245 AgrOrtholog
BioCyc Gene G2FUF-52328 BioCyc
Ensembl Genes ENSRNOG00000011821 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000015958 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015958 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot
  EF_hand_dom UniProtKB/Swiss-Prot
  S-100_dom UniProtKB/Swiss-Prot
  S100-A4 UniProtKB/Swiss-Prot
  S100/CaBP-9k_CS UniProtKB/Swiss-Prot
  S100_Ca-bd_sub UniProtKB/Swiss-Prot
KEGG Report rno:24615 UniProtKB/Swiss-Prot
NCBI Gene 24615 ENTREZGENE
PANTHER PTHR11639:SF51 UniProtKB/Swiss-Prot
Pfam S_100 UniProtKB/Swiss-Prot
PhenoGen S100a4 PhenoGen
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot
  EF_HAND_2 UniProtKB/Swiss-Prot
  S100_CABP UniProtKB/Swiss-Prot
SMART EFh UniProtKB/Swiss-Prot
  S_100 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot
TIGR TC228997
UniProt P05942 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 S100a4  S100 calcium-binding protein A4      Symbol and Name status set to approved 70586 APPROVED
2001-04-19 P9ka  Protein 9 Ka homologous to calcium-binding protein      Symbol and name withdrawn 61478 WITHDRAWN
2001-04-19 S100a4  S100 calcium-binding protein A4      Symbol and name updated to reflect Human and Mouse nomenclature 61478 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease has metastasis-inducing capabilities  
gene_process involved in the regulation of cell cycle progression, modulating intercellular adhesion, and invasive and metastatic properties of cancer cells  
gene_regulation expression increases at the onset of high-fat-diet obesity 625747
gene_regulation expression is induced by nerve growth factor (NGF) 729699